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Dendroscope - An interactive viewer for large phylogenetic trees

Researchers studying phylogenetic relationships need software that is able to visualize trees efficiently, increasingly of large datasets involving hundreds of thousands of taxa. The program should be user friendly (easy to run on all popular operating systems), facilitate interactive browsing and editing the trees and allow one to export the result in multiple file formats in publication quality.

We have developed the platform independent tree viewer Dendroscope that addresses these issues. 

Feature List:

  • large trees with hundreds of thousands of taxa can be easily displayed, browsed and edited;
  • novel magnifiying features for zooming detailed views (see screenshots);
  • search functionality to search trees with regular expressions;
  • subtrees can be collapsed and colored;
  • all labels (leaves/inner nodes and edges) can be edited;
  • trees can be rerooted;
  • four views are available: rectangular, slanted, circular and radial view;
  • input formats: Newick and Nexus and Dendroscope;
  • multiple graphic export formats: .eps, .svg, .png, .jpg, .gif, .bmp;
  • platform independent (Java, installers for common operating systems available)

Download

Use of the program is free, but we require that you cite our paper on Dendroscope in any paper reporting on results obtained
with the help of the program.
The software is written in Java 1.4 and installers are provided for Linux/Unix, MacOS X and Windows.

Download here.

You can test the performance of the program on the NCBI taxonomy.

Webstart

To launch the program immediately click here.

Reference and Contact

Daniel H Huson, Daniel C Richter, Christian Rausch, Tobias Dezulian, Markus Franz and Regula Rupp.
Dendroscope: An interactive viewer for large phylogenetic trees.
BMC Bioinformatics. 2007 Nov 22;8(1):460
Reference (Here you can find Table 1 from the paper in case it is wrongly displayed in the pdf or at the BMC webpage.)

If you have any comments or questions feel free to write us an email.

You can also reach this site via: http://www.dendroscope.org

Screenshots


Same tree - seven different views: Rectangular Phylogram, Rectangular Cladogram, Slanted Cladogram, Circular Phylogram, Circular Cladogram,
Radial Phylogram and Radial Cladogram:



Overview


Part of the NCBI taxonomy showing Homo sapiens and his relatives without the magnifier:

without magnifier1


Same detail of previous tree with the magnifier turned on:

with magnifier1


Part of a slanted cladogram with magnifier turned off:

without magnifier2


Same part of previous cladogram with magnifier turned on:

with magnifier2



All labels and tree substructures can be easily edited:

Tree formating


University of Tübingen